Multiple sequence alignment - TraesCS1A01G146600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1A01G146600 chr1A 100.000 5296 0 0 548 5843 252829144 252823849 0.000000e+00 9780.0
1 TraesCS1A01G146600 chr1A 100.000 265 0 0 1 265 252829691 252829427 1.890000e-134 490.0
2 TraesCS1A01G146600 chr1D 96.648 2924 90 8 2192 5112 199926535 199923617 0.000000e+00 4850.0
3 TraesCS1A01G146600 chr1D 93.967 1674 65 13 548 2197 199928230 199926569 0.000000e+00 2499.0
4 TraesCS1A01G146600 chr1D 93.023 215 12 3 5108 5322 199923461 199923250 1.580000e-80 311.0
5 TraesCS1A01G146600 chr1D 94.444 162 2 1 104 265 199928390 199928236 5.850000e-60 243.0
6 TraesCS1A01G146600 chr1B 93.092 1737 98 16 2192 3920 288160800 288162522 0.000000e+00 2523.0
7 TraesCS1A01G146600 chr1B 94.101 1441 61 13 4060 5484 288165150 288166582 0.000000e+00 2169.0
8 TraesCS1A01G146600 chr1B 92.653 980 47 7 548 1508 288159358 288160331 0.000000e+00 1387.0
9 TraesCS1A01G146600 chr1B 88.713 443 32 4 1763 2204 288160348 288160773 5.190000e-145 525.0
10 TraesCS1A01G146600 chr1B 91.304 207 17 1 5607 5812 288167463 288167669 1.240000e-71 281.0
11 TraesCS1A01G146600 chr1B 90.303 165 5 2 101 265 288159199 288159352 7.680000e-49 206.0
12 TraesCS1A01G146600 chr1B 81.560 141 17 4 5570 5701 317317449 317317589 2.230000e-19 108.0
13 TraesCS1A01G146600 chr1B 94.340 53 3 0 5565 5617 288166683 288166735 1.350000e-11 82.4
14 TraesCS1A01G146600 chr1B 84.483 58 9 0 5621 5678 335879637 335879580 2.270000e-04 58.4
15 TraesCS1A01G146600 chr6D 88.112 143 17 0 5701 5843 364839470 364839328 2.800000e-38 171.0
16 TraesCS1A01G146600 chr6D 87.234 141 17 1 5701 5840 423078964 423079104 6.060000e-35 159.0
17 TraesCS1A01G146600 chr4B 88.028 142 17 0 5701 5842 608052408 608052549 1.010000e-37 169.0
18 TraesCS1A01G146600 chr4B 85.827 127 18 0 5711 5837 472743667 472743793 1.020000e-27 135.0
19 TraesCS1A01G146600 chr7D 87.591 137 16 1 5701 5836 108064097 108063961 2.180000e-34 158.0
20 TraesCS1A01G146600 chr7D 86.331 139 18 1 5702 5839 421171830 421171692 3.650000e-32 150.0
21 TraesCS1A01G146600 chr7D 84.783 138 20 1 5703 5839 511321898 511321761 2.840000e-28 137.0
22 TraesCS1A01G146600 chr5B 86.014 143 11 8 5705 5842 503253868 503254006 1.700000e-30 145.0
23 TraesCS1A01G146600 chr5B 88.889 81 9 0 5621 5701 285498841 285498761 3.730000e-17 100.0
24 TraesCS1A01G146600 chr7B 82.022 89 14 2 5614 5701 242907834 242907747 2.260000e-09 75.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1A01G146600 chr1A 252823849 252829691 5842 True 5135.000000 9780 100.000000 1 5843 2 chr1A.!!$R1 5842
1 TraesCS1A01G146600 chr1D 199923250 199928390 5140 True 1975.750000 4850 94.520500 104 5322 4 chr1D.!!$R1 5218
2 TraesCS1A01G146600 chr1B 288159199 288167669 8470 False 1024.771429 2523 92.072286 101 5812 7 chr1B.!!$F2 5711

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
72 73 0.037232 CTTCGGTTCTGAGTCCCACC 60.037 60.000 0.00 0.00 0.00 4.61 F
714 715 1.003118 CAGCCCAGCCAAACACTAGTA 59.997 52.381 0.00 0.00 0.00 1.82 F
1951 1975 2.009774 GTGCACTTGACAAGTCACTGT 58.990 47.619 26.56 2.64 40.46 3.55 F
3554 3625 1.566211 CATGGTTTATTGGTGGGCCA 58.434 50.000 0.00 0.00 44.38 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1650 1671 2.673043 GCACACCTCAAAGGCATGATTG 60.673 50.0 0.00 0.00 39.63 2.67 R
2641 2705 0.254462 TCACCACACCAGCAGAACAA 59.746 50.0 0.00 0.00 0.00 2.83 R
3773 3844 1.580059 TTGGAAGTAGGCCAGGTAGG 58.420 55.0 5.01 0.00 36.64 3.18 R
5546 8302 0.887387 CCTTGCCTCGTTCCGGAAAA 60.887 55.0 20.79 9.49 0.00 2.29 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 2.107141 CCGGATCGGTTCTGCTCC 59.893 66.667 0.00 0.00 42.73 4.70
25 26 2.427245 CCGGATCGGTTCTGCTCCT 61.427 63.158 0.00 0.00 42.73 3.69
26 27 1.066587 CGGATCGGTTCTGCTCCTC 59.933 63.158 1.01 0.00 0.00 3.71
27 28 1.388065 CGGATCGGTTCTGCTCCTCT 61.388 60.000 1.01 0.00 0.00 3.69
28 29 0.827368 GGATCGGTTCTGCTCCTCTT 59.173 55.000 0.00 0.00 0.00 2.85
29 30 1.208293 GGATCGGTTCTGCTCCTCTTT 59.792 52.381 0.00 0.00 0.00 2.52
30 31 2.545731 GATCGGTTCTGCTCCTCTTTC 58.454 52.381 0.00 0.00 0.00 2.62
31 32 0.608640 TCGGTTCTGCTCCTCTTTCC 59.391 55.000 0.00 0.00 0.00 3.13
32 33 0.391793 CGGTTCTGCTCCTCTTTCCC 60.392 60.000 0.00 0.00 0.00 3.97
33 34 0.391793 GGTTCTGCTCCTCTTTCCCG 60.392 60.000 0.00 0.00 0.00 5.14
34 35 0.321996 GTTCTGCTCCTCTTTCCCGT 59.678 55.000 0.00 0.00 0.00 5.28
35 36 1.549170 GTTCTGCTCCTCTTTCCCGTA 59.451 52.381 0.00 0.00 0.00 4.02
36 37 1.183549 TCTGCTCCTCTTTCCCGTAC 58.816 55.000 0.00 0.00 0.00 3.67
37 38 0.175989 CTGCTCCTCTTTCCCGTACC 59.824 60.000 0.00 0.00 0.00 3.34
38 39 1.262640 TGCTCCTCTTTCCCGTACCC 61.263 60.000 0.00 0.00 0.00 3.69
39 40 0.976590 GCTCCTCTTTCCCGTACCCT 60.977 60.000 0.00 0.00 0.00 4.34
40 41 1.569653 CTCCTCTTTCCCGTACCCTT 58.430 55.000 0.00 0.00 0.00 3.95
41 42 1.907255 CTCCTCTTTCCCGTACCCTTT 59.093 52.381 0.00 0.00 0.00 3.11
42 43 1.904537 TCCTCTTTCCCGTACCCTTTC 59.095 52.381 0.00 0.00 0.00 2.62
43 44 1.907255 CCTCTTTCCCGTACCCTTTCT 59.093 52.381 0.00 0.00 0.00 2.52
44 45 2.305052 CCTCTTTCCCGTACCCTTTCTT 59.695 50.000 0.00 0.00 0.00 2.52
45 46 3.244805 CCTCTTTCCCGTACCCTTTCTTT 60.245 47.826 0.00 0.00 0.00 2.52
46 47 4.001652 CTCTTTCCCGTACCCTTTCTTTC 58.998 47.826 0.00 0.00 0.00 2.62
47 48 2.865119 TTCCCGTACCCTTTCTTTCC 57.135 50.000 0.00 0.00 0.00 3.13
48 49 2.034436 TCCCGTACCCTTTCTTTCCT 57.966 50.000 0.00 0.00 0.00 3.36
49 50 1.904537 TCCCGTACCCTTTCTTTCCTC 59.095 52.381 0.00 0.00 0.00 3.71
50 51 1.907255 CCCGTACCCTTTCTTTCCTCT 59.093 52.381 0.00 0.00 0.00 3.69
51 52 2.093606 CCCGTACCCTTTCTTTCCTCTC 60.094 54.545 0.00 0.00 0.00 3.20
52 53 2.416972 CCGTACCCTTTCTTTCCTCTCG 60.417 54.545 0.00 0.00 0.00 4.04
53 54 2.619147 GTACCCTTTCTTTCCTCTCGC 58.381 52.381 0.00 0.00 0.00 5.03
54 55 1.353091 ACCCTTTCTTTCCTCTCGCT 58.647 50.000 0.00 0.00 0.00 4.93
55 56 1.700186 ACCCTTTCTTTCCTCTCGCTT 59.300 47.619 0.00 0.00 0.00 4.68
56 57 2.289756 ACCCTTTCTTTCCTCTCGCTTC 60.290 50.000 0.00 0.00 0.00 3.86
57 58 1.996191 CCTTTCTTTCCTCTCGCTTCG 59.004 52.381 0.00 0.00 0.00 3.79
58 59 1.996191 CTTTCTTTCCTCTCGCTTCGG 59.004 52.381 0.00 0.00 0.00 4.30
59 60 0.966920 TTCTTTCCTCTCGCTTCGGT 59.033 50.000 0.00 0.00 0.00 4.69
60 61 0.966920 TCTTTCCTCTCGCTTCGGTT 59.033 50.000 0.00 0.00 0.00 4.44
61 62 1.067776 TCTTTCCTCTCGCTTCGGTTC 60.068 52.381 0.00 0.00 0.00 3.62
62 63 0.966920 TTTCCTCTCGCTTCGGTTCT 59.033 50.000 0.00 0.00 0.00 3.01
63 64 0.243907 TTCCTCTCGCTTCGGTTCTG 59.756 55.000 0.00 0.00 0.00 3.02
64 65 0.608308 TCCTCTCGCTTCGGTTCTGA 60.608 55.000 0.00 0.00 0.00 3.27
65 66 0.179150 CCTCTCGCTTCGGTTCTGAG 60.179 60.000 0.00 0.00 0.00 3.35
66 67 0.523966 CTCTCGCTTCGGTTCTGAGT 59.476 55.000 0.00 0.00 0.00 3.41
67 68 0.522180 TCTCGCTTCGGTTCTGAGTC 59.478 55.000 0.00 0.00 0.00 3.36
68 69 0.456995 CTCGCTTCGGTTCTGAGTCC 60.457 60.000 0.00 0.00 0.00 3.85
69 70 1.446272 CGCTTCGGTTCTGAGTCCC 60.446 63.158 0.00 0.00 0.00 4.46
70 71 1.671742 GCTTCGGTTCTGAGTCCCA 59.328 57.895 0.00 0.00 0.00 4.37
71 72 0.670854 GCTTCGGTTCTGAGTCCCAC 60.671 60.000 0.00 0.00 0.00 4.61
72 73 0.037232 CTTCGGTTCTGAGTCCCACC 60.037 60.000 0.00 0.00 0.00 4.61
73 74 2.261671 CGGTTCTGAGTCCCACCG 59.738 66.667 9.69 9.69 45.75 4.94
74 75 2.663196 GGTTCTGAGTCCCACCGG 59.337 66.667 0.00 0.00 0.00 5.28
75 76 2.663196 GTTCTGAGTCCCACCGGG 59.337 66.667 6.32 0.00 46.11 5.73
144 145 1.079127 GCACTAGAGGGAAAGCGCA 60.079 57.895 11.47 0.00 0.00 6.09
714 715 1.003118 CAGCCCAGCCAAACACTAGTA 59.997 52.381 0.00 0.00 0.00 1.82
746 747 9.046296 CGAATTTTCTATGCTCCTGTAAATAGT 57.954 33.333 0.00 0.00 0.00 2.12
748 749 9.905713 AATTTTCTATGCTCCTGTAAATAGTCA 57.094 29.630 0.00 0.00 0.00 3.41
752 753 9.982651 TTCTATGCTCCTGTAAATAGTCATAAC 57.017 33.333 0.00 0.00 0.00 1.89
754 755 9.988815 CTATGCTCCTGTAAATAGTCATAACTT 57.011 33.333 0.00 0.00 36.92 2.66
796 816 4.384940 GTTCAAGAGCCAAGGATAGGATC 58.615 47.826 0.00 0.00 41.78 3.36
808 828 5.799827 AGGATAGGATCTGCTACTGTTTC 57.200 43.478 0.00 0.00 0.00 2.78
816 836 2.563179 TCTGCTACTGTTTCTCACTCCC 59.437 50.000 0.00 0.00 0.00 4.30
819 839 2.300437 GCTACTGTTTCTCACTCCCACT 59.700 50.000 0.00 0.00 0.00 4.00
820 840 3.244249 GCTACTGTTTCTCACTCCCACTT 60.244 47.826 0.00 0.00 0.00 3.16
821 841 3.933861 ACTGTTTCTCACTCCCACTTT 57.066 42.857 0.00 0.00 0.00 2.66
822 842 5.510861 GCTACTGTTTCTCACTCCCACTTTA 60.511 44.000 0.00 0.00 0.00 1.85
823 843 4.962155 ACTGTTTCTCACTCCCACTTTAG 58.038 43.478 0.00 0.00 0.00 1.85
832 852 8.375493 TCTCACTCCCACTTTAGTTGTAATAT 57.625 34.615 0.00 0.00 0.00 1.28
939 959 5.016173 TGCCTGAATAGGTTTTGCTACATT 58.984 37.500 0.00 0.00 46.41 2.71
1392 1412 4.568760 GTCACTGAGCCTCTTTATACTTGC 59.431 45.833 0.00 0.00 0.00 4.01
1439 1459 9.614792 ATTACCATCTTACTGTAGTGGAAAATC 57.385 33.333 17.38 0.00 34.13 2.17
1482 1502 2.684881 AGGCCATTCGCTTGATAAAGTG 59.315 45.455 5.01 0.00 37.74 3.16
1504 1524 7.931275 AGTGGATTGTTTAGTTCAGTCTTTTC 58.069 34.615 0.00 0.00 0.00 2.29
1608 1629 5.670361 TGAATACCCCTGATAGGCTAGTTTT 59.330 40.000 0.00 0.00 32.73 2.43
1609 1630 6.159751 TGAATACCCCTGATAGGCTAGTTTTT 59.840 38.462 0.00 0.00 32.73 1.94
1637 1658 5.129320 TGTTAATCTCTCTCCAATGCTGCTA 59.871 40.000 0.00 0.00 0.00 3.49
1650 1671 5.751028 CCAATGCTGCTACTAGAAGTCTTAC 59.249 44.000 0.00 0.00 0.00 2.34
1688 1709 5.248477 AGGTGTGCCTATCTTCTTGAGTTTA 59.752 40.000 0.00 0.00 44.90 2.01
1951 1975 2.009774 GTGCACTTGACAAGTCACTGT 58.990 47.619 26.56 2.64 40.46 3.55
1956 1980 4.025647 GCACTTGACAAGTCACTGTAGAAC 60.026 45.833 18.02 0.00 40.46 3.01
2059 2084 5.593679 TGGGTATAGTGCAGAAAGTACTC 57.406 43.478 0.00 0.00 42.56 2.59
2103 2128 8.912988 TGAAAAGGATTTGTGTCTAATGAAAGT 58.087 29.630 0.00 0.00 39.02 2.66
2380 2444 4.389374 ACATTGAGTCCAAAATCTCGTGT 58.611 39.130 0.00 0.00 35.67 4.49
2664 2728 3.517500 TGTTCTGCTGGTGTGGTGATATA 59.482 43.478 0.00 0.00 0.00 0.86
2729 2793 7.391148 TTCAAATTGCCTAGTAATTGAGGAC 57.609 36.000 6.98 0.81 34.46 3.85
2732 2796 6.567602 AATTGCCTAGTAATTGAGGACTCT 57.432 37.500 6.98 0.00 34.46 3.24
2897 2966 8.567285 AGCAATAAAACATAGCTTCAGTAACT 57.433 30.769 0.00 0.00 29.98 2.24
3020 3089 7.814587 TGATCTTCCACATCATAATAGCTTACG 59.185 37.037 0.00 0.00 0.00 3.18
3044 3113 5.240623 GGTGGTACAACTTGATGAATTCACA 59.759 40.000 11.07 8.35 46.61 3.58
3174 3245 6.465439 TTACATCCACCACATCTACACTAG 57.535 41.667 0.00 0.00 0.00 2.57
3189 3260 3.182152 ACACTAGCATTACTGGTTCCCT 58.818 45.455 0.00 0.00 38.17 4.20
3521 3592 2.505364 GCCCAGGGATTGAAGGCACT 62.505 60.000 10.89 0.00 43.32 4.40
3554 3625 1.566211 CATGGTTTATTGGTGGGCCA 58.434 50.000 0.00 0.00 44.38 5.36
3705 3776 5.482908 ACTTCACAGGCTAACACTTCTATG 58.517 41.667 0.00 0.00 0.00 2.23
3768 3839 6.757897 TTGATGGACCATTTCAGATGTTAC 57.242 37.500 8.78 0.00 0.00 2.50
3773 3844 3.694566 GACCATTTCAGATGTTACCCCAC 59.305 47.826 0.00 0.00 0.00 4.61
3777 3849 4.563140 TTTCAGATGTTACCCCACCTAC 57.437 45.455 0.00 0.00 0.00 3.18
3798 3870 2.509964 CCTGGCCTACTTCCAAATACCT 59.490 50.000 3.32 0.00 32.41 3.08
3825 3897 5.814764 TGTGTTTTGCGTTACTAGGAAAA 57.185 34.783 0.00 0.00 36.75 2.29
3845 3917 1.289160 TTGCTAGAGGAACCCATGCT 58.711 50.000 0.00 0.00 0.00 3.79
3905 3977 5.240623 ACATCAATCGTTTGAAGCTGGTTTA 59.759 36.000 12.62 0.00 44.70 2.01
4021 5089 6.446781 TTGGTAGGTCTACTTAATGACTCG 57.553 41.667 7.90 0.00 36.36 4.18
4276 6845 0.796927 GTCTTGTAGCGAACTTGGCC 59.203 55.000 0.00 0.00 0.00 5.36
4336 6905 1.683938 GGTGTATACTTTGGGTGGGCC 60.684 57.143 4.17 0.00 0.00 5.80
4523 7092 5.279156 GCTTCATGGTTTTGATGAGGACTTT 60.279 40.000 0.00 0.00 30.41 2.66
4526 7095 7.214467 TCATGGTTTTGATGAGGACTTTTAC 57.786 36.000 0.00 0.00 0.00 2.01
4645 7216 9.935241 GTTTTTAGTAACTAGCTAGTAACCCTT 57.065 33.333 26.29 12.34 34.99 3.95
4769 7340 5.246307 GGAGTATGCCAAGTACAAAGAGTT 58.754 41.667 0.00 0.00 0.00 3.01
4907 7478 7.336931 GCACATTCTCTACTTGGGAGATAAAAA 59.663 37.037 0.00 0.00 39.23 1.94
4908 7479 8.887717 CACATTCTCTACTTGGGAGATAAAAAG 58.112 37.037 0.00 0.00 39.23 2.27
4936 7508 2.270923 TCTGATTCAGAAACGATGCCG 58.729 47.619 13.96 0.00 37.57 5.69
4977 7549 2.602746 TACCACTGCTTATGGCCGGC 62.603 60.000 21.18 21.18 41.31 6.13
5052 7628 9.436957 CTGTGTATACTTGGATTCCCATTATAC 57.563 37.037 13.34 13.34 43.12 1.47
5053 7629 9.166222 TGTGTATACTTGGATTCCCATTATACT 57.834 33.333 17.77 0.00 43.12 2.12
5109 7685 6.621596 GCATACTGTGAGTGGAAAGCTTTTAG 60.622 42.308 14.05 4.98 0.00 1.85
5206 7944 2.190981 CTGTAAACGAGGCGATGTACC 58.809 52.381 0.00 0.00 0.00 3.34
5242 7980 2.025155 GAGCAGTCTACTCGATCCCAA 58.975 52.381 0.00 0.00 0.00 4.12
5279 8017 3.478509 AGTAGCTCGTACATACTGGAGG 58.521 50.000 0.00 0.00 33.55 4.30
5283 8021 2.954318 GCTCGTACATACTGGAGGGTAA 59.046 50.000 0.00 0.00 0.00 2.85
5304 8042 4.823790 ATTCAAACGTGGTCACTTTACC 57.176 40.909 0.00 0.00 40.19 2.85
5343 8081 1.001974 TGGTCACTGGACTCGGAAATG 59.998 52.381 0.00 0.00 43.77 2.32
5348 8086 1.906574 ACTGGACTCGGAAATGCCTAA 59.093 47.619 0.00 0.00 0.00 2.69
5350 8088 3.054361 ACTGGACTCGGAAATGCCTAAAT 60.054 43.478 0.00 0.00 0.00 1.40
5361 8099 7.042321 TCGGAAATGCCTAAATTACGATTACAG 60.042 37.037 0.00 0.00 29.58 2.74
5369 8107 7.096558 GCCTAAATTACGATTACAGAAGTCTCG 60.097 40.741 0.00 0.00 38.36 4.04
5425 8163 4.336153 TCATCTGTATACGCTTACGGTGAA 59.664 41.667 0.00 0.00 46.04 3.18
5454 8192 0.178068 TTCTGCTCTGTATTCCGCCC 59.822 55.000 0.00 0.00 0.00 6.13
5461 8199 2.266689 GTATTCCGCCCACGTGGT 59.733 61.111 31.80 15.66 40.82 4.16
5479 8217 4.319477 CGTGGTGTAAGATTTGACTGGTTG 60.319 45.833 0.00 0.00 0.00 3.77
5484 8222 5.049405 GTGTAAGATTTGACTGGTTGACTGG 60.049 44.000 0.00 0.00 0.00 4.00
5485 8223 3.146104 AGATTTGACTGGTTGACTGGG 57.854 47.619 0.00 0.00 0.00 4.45
5517 8273 0.104855 TTTGCAGCACGTCTCTGTCT 59.895 50.000 13.83 0.00 34.21 3.41
5523 8279 3.181526 GCAGCACGTCTCTGTCTATTTTG 60.182 47.826 13.83 0.00 34.21 2.44
5524 8280 2.996621 AGCACGTCTCTGTCTATTTTGC 59.003 45.455 0.00 0.00 0.00 3.68
5525 8281 2.736721 GCACGTCTCTGTCTATTTTGCA 59.263 45.455 0.00 0.00 0.00 4.08
5526 8282 3.372206 GCACGTCTCTGTCTATTTTGCAT 59.628 43.478 0.00 0.00 0.00 3.96
5527 8283 4.566759 GCACGTCTCTGTCTATTTTGCATA 59.433 41.667 0.00 0.00 0.00 3.14
5528 8284 5.063438 GCACGTCTCTGTCTATTTTGCATAA 59.937 40.000 0.00 0.00 0.00 1.90
5529 8285 6.402118 GCACGTCTCTGTCTATTTTGCATAAA 60.402 38.462 0.00 0.00 0.00 1.40
5530 8286 7.677276 GCACGTCTCTGTCTATTTTGCATAAAT 60.677 37.037 10.36 10.36 0.00 1.40
5531 8287 7.848051 CACGTCTCTGTCTATTTTGCATAAATC 59.152 37.037 9.24 0.08 0.00 2.17
5532 8288 7.549134 ACGTCTCTGTCTATTTTGCATAAATCA 59.451 33.333 9.24 3.56 0.00 2.57
5533 8289 8.554528 CGTCTCTGTCTATTTTGCATAAATCAT 58.445 33.333 9.24 0.00 0.00 2.45
5534 8290 9.875675 GTCTCTGTCTATTTTGCATAAATCATC 57.124 33.333 9.24 4.25 0.00 2.92
5535 8291 9.060347 TCTCTGTCTATTTTGCATAAATCATCC 57.940 33.333 9.24 1.12 0.00 3.51
5536 8292 8.169977 TCTGTCTATTTTGCATAAATCATCCC 57.830 34.615 9.24 0.00 0.00 3.85
5537 8293 8.000709 TCTGTCTATTTTGCATAAATCATCCCT 58.999 33.333 9.24 0.00 0.00 4.20
5538 8294 8.169977 TGTCTATTTTGCATAAATCATCCCTC 57.830 34.615 9.24 0.23 0.00 4.30
5539 8295 7.779326 TGTCTATTTTGCATAAATCATCCCTCA 59.221 33.333 9.24 1.99 0.00 3.86
5540 8296 8.078596 GTCTATTTTGCATAAATCATCCCTCAC 58.921 37.037 9.24 0.00 0.00 3.51
5541 8297 8.000709 TCTATTTTGCATAAATCATCCCTCACT 58.999 33.333 9.24 0.00 0.00 3.41
5542 8298 5.840243 TTTGCATAAATCATCCCTCACTG 57.160 39.130 0.00 0.00 0.00 3.66
5543 8299 4.508551 TGCATAAATCATCCCTCACTGT 57.491 40.909 0.00 0.00 0.00 3.55
5544 8300 4.858850 TGCATAAATCATCCCTCACTGTT 58.141 39.130 0.00 0.00 0.00 3.16
5545 8301 5.263599 TGCATAAATCATCCCTCACTGTTT 58.736 37.500 0.00 0.00 0.00 2.83
5546 8302 5.716228 TGCATAAATCATCCCTCACTGTTTT 59.284 36.000 0.00 0.00 0.00 2.43
5547 8303 6.211184 TGCATAAATCATCCCTCACTGTTTTT 59.789 34.615 0.00 0.00 0.00 1.94
5592 8373 0.247814 CTTATTTCGGCTGCTGCACG 60.248 55.000 17.89 17.02 41.91 5.34
5613 9132 2.483877 GTCAACACATCTCAAATGCGGA 59.516 45.455 0.00 0.00 0.00 5.54
5618 9137 4.012374 ACACATCTCAAATGCGGATTCTT 58.988 39.130 1.48 0.00 0.00 2.52
5637 9156 5.929697 TCTTAAATCCATGCATGTCGATC 57.070 39.130 24.58 0.00 0.00 3.69
5642 9161 3.749665 TCCATGCATGTCGATCATACA 57.250 42.857 24.58 0.73 34.74 2.29
5643 9162 4.070630 TCCATGCATGTCGATCATACAA 57.929 40.909 24.58 0.00 34.06 2.41
5652 9171 6.733725 GCATGTCGATCATACAATACAAATCG 59.266 38.462 2.30 0.00 37.83 3.34
5666 9185 4.927978 ACAAATCGTCCCAATTCAACAA 57.072 36.364 0.00 0.00 0.00 2.83
5685 9204 7.356540 TCAACAATTCGAAACAAATACGACAT 58.643 30.769 0.00 0.00 35.82 3.06
5693 9212 7.523219 TCGAAACAAATACGACATAGCAAATT 58.477 30.769 0.00 0.00 0.00 1.82
5744 9264 1.333308 CGGTGCCGCATATTGAATTCA 59.667 47.619 3.38 3.38 0.00 2.57
5750 9270 4.097589 TGCCGCATATTGAATTCATTGTGA 59.902 37.500 23.26 5.44 0.00 3.58
5758 9278 5.423704 TTGAATTCATTGTGATGGCCAAT 57.576 34.783 10.96 0.00 33.93 3.16
5766 9286 2.250031 TGTGATGGCCAATCAAGCTTT 58.750 42.857 10.96 0.00 46.90 3.51
5792 9312 9.527157 TGACCAACAAGATATCCTCAAAAATTA 57.473 29.630 0.00 0.00 0.00 1.40
5795 9315 9.807649 CCAACAAGATATCCTCAAAAATTAAGG 57.192 33.333 0.00 0.00 0.00 2.69
5812 9332 2.514824 GATGCCGGACCTCTTGCC 60.515 66.667 5.05 0.00 0.00 4.52
5813 9333 3.011517 ATGCCGGACCTCTTGCCT 61.012 61.111 5.05 0.00 0.00 4.75
5814 9334 2.543067 GATGCCGGACCTCTTGCCTT 62.543 60.000 5.05 0.00 0.00 4.35
5815 9335 2.034221 GCCGGACCTCTTGCCTTT 59.966 61.111 5.05 0.00 0.00 3.11
5816 9336 2.335712 GCCGGACCTCTTGCCTTTG 61.336 63.158 5.05 0.00 0.00 2.77
5817 9337 1.073199 CCGGACCTCTTGCCTTTGT 59.927 57.895 0.00 0.00 0.00 2.83
5818 9338 0.955919 CCGGACCTCTTGCCTTTGTC 60.956 60.000 0.00 0.00 0.00 3.18
5819 9339 0.035458 CGGACCTCTTGCCTTTGTCT 59.965 55.000 0.00 0.00 0.00 3.41
5820 9340 1.543429 CGGACCTCTTGCCTTTGTCTT 60.543 52.381 0.00 0.00 0.00 3.01
5821 9341 2.155279 GGACCTCTTGCCTTTGTCTTC 58.845 52.381 0.00 0.00 0.00 2.87
5822 9342 2.224646 GGACCTCTTGCCTTTGTCTTCT 60.225 50.000 0.00 0.00 0.00 2.85
5823 9343 3.481453 GACCTCTTGCCTTTGTCTTCTT 58.519 45.455 0.00 0.00 0.00 2.52
5824 9344 3.481453 ACCTCTTGCCTTTGTCTTCTTC 58.519 45.455 0.00 0.00 0.00 2.87
5825 9345 3.137360 ACCTCTTGCCTTTGTCTTCTTCT 59.863 43.478 0.00 0.00 0.00 2.85
5826 9346 4.140536 CCTCTTGCCTTTGTCTTCTTCTT 58.859 43.478 0.00 0.00 0.00 2.52
5827 9347 4.215185 CCTCTTGCCTTTGTCTTCTTCTTC 59.785 45.833 0.00 0.00 0.00 2.87
5828 9348 5.041191 TCTTGCCTTTGTCTTCTTCTTCT 57.959 39.130 0.00 0.00 0.00 2.85
5829 9349 5.440610 TCTTGCCTTTGTCTTCTTCTTCTT 58.559 37.500 0.00 0.00 0.00 2.52
5830 9350 5.529060 TCTTGCCTTTGTCTTCTTCTTCTTC 59.471 40.000 0.00 0.00 0.00 2.87
5831 9351 5.041191 TGCCTTTGTCTTCTTCTTCTTCT 57.959 39.130 0.00 0.00 0.00 2.85
5832 9352 5.440610 TGCCTTTGTCTTCTTCTTCTTCTT 58.559 37.500 0.00 0.00 0.00 2.52
5833 9353 5.529060 TGCCTTTGTCTTCTTCTTCTTCTTC 59.471 40.000 0.00 0.00 0.00 2.87
5834 9354 5.762711 GCCTTTGTCTTCTTCTTCTTCTTCT 59.237 40.000 0.00 0.00 0.00 2.85
5835 9355 6.262049 GCCTTTGTCTTCTTCTTCTTCTTCTT 59.738 38.462 0.00 0.00 0.00 2.52
5836 9356 7.519809 GCCTTTGTCTTCTTCTTCTTCTTCTTC 60.520 40.741 0.00 0.00 0.00 2.87
5837 9357 7.714813 CCTTTGTCTTCTTCTTCTTCTTCTTCT 59.285 37.037 0.00 0.00 0.00 2.85
5838 9358 9.108284 CTTTGTCTTCTTCTTCTTCTTCTTCTT 57.892 33.333 0.00 0.00 0.00 2.52
5839 9359 8.655651 TTGTCTTCTTCTTCTTCTTCTTCTTC 57.344 34.615 0.00 0.00 0.00 2.87
5840 9360 8.017418 TGTCTTCTTCTTCTTCTTCTTCTTCT 57.983 34.615 0.00 0.00 0.00 2.85
5841 9361 8.482128 TGTCTTCTTCTTCTTCTTCTTCTTCTT 58.518 33.333 0.00 0.00 0.00 2.52
5842 9362 8.978539 GTCTTCTTCTTCTTCTTCTTCTTCTTC 58.021 37.037 0.00 0.00 0.00 2.87
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.066587 GAGGAGCAGAACCGATCCG 59.933 63.158 0.00 0.00 36.91 4.18
9 10 0.827368 AAGAGGAGCAGAACCGATCC 59.173 55.000 0.00 0.00 0.00 3.36
10 11 2.545731 GAAAGAGGAGCAGAACCGATC 58.454 52.381 0.00 0.00 0.00 3.69
11 12 1.208293 GGAAAGAGGAGCAGAACCGAT 59.792 52.381 0.00 0.00 0.00 4.18
12 13 0.608640 GGAAAGAGGAGCAGAACCGA 59.391 55.000 0.00 0.00 0.00 4.69
13 14 0.391793 GGGAAAGAGGAGCAGAACCG 60.392 60.000 0.00 0.00 0.00 4.44
14 15 0.391793 CGGGAAAGAGGAGCAGAACC 60.392 60.000 0.00 0.00 0.00 3.62
15 16 0.321996 ACGGGAAAGAGGAGCAGAAC 59.678 55.000 0.00 0.00 0.00 3.01
16 17 1.549170 GTACGGGAAAGAGGAGCAGAA 59.451 52.381 0.00 0.00 0.00 3.02
17 18 1.183549 GTACGGGAAAGAGGAGCAGA 58.816 55.000 0.00 0.00 0.00 4.26
18 19 0.175989 GGTACGGGAAAGAGGAGCAG 59.824 60.000 0.00 0.00 0.00 4.24
19 20 1.262640 GGGTACGGGAAAGAGGAGCA 61.263 60.000 0.00 0.00 0.00 4.26
20 21 0.976590 AGGGTACGGGAAAGAGGAGC 60.977 60.000 0.00 0.00 0.00 4.70
21 22 1.569653 AAGGGTACGGGAAAGAGGAG 58.430 55.000 0.00 0.00 0.00 3.69
22 23 1.904537 GAAAGGGTACGGGAAAGAGGA 59.095 52.381 0.00 0.00 0.00 3.71
23 24 1.907255 AGAAAGGGTACGGGAAAGAGG 59.093 52.381 0.00 0.00 0.00 3.69
24 25 3.697619 AAGAAAGGGTACGGGAAAGAG 57.302 47.619 0.00 0.00 0.00 2.85
25 26 3.244665 GGAAAGAAAGGGTACGGGAAAGA 60.245 47.826 0.00 0.00 0.00 2.52
26 27 3.079578 GGAAAGAAAGGGTACGGGAAAG 58.920 50.000 0.00 0.00 0.00 2.62
27 28 2.712627 AGGAAAGAAAGGGTACGGGAAA 59.287 45.455 0.00 0.00 0.00 3.13
28 29 2.303890 GAGGAAAGAAAGGGTACGGGAA 59.696 50.000 0.00 0.00 0.00 3.97
29 30 1.904537 GAGGAAAGAAAGGGTACGGGA 59.095 52.381 0.00 0.00 0.00 5.14
30 31 1.907255 AGAGGAAAGAAAGGGTACGGG 59.093 52.381 0.00 0.00 0.00 5.28
31 32 2.416972 CGAGAGGAAAGAAAGGGTACGG 60.417 54.545 0.00 0.00 0.00 4.02
32 33 2.877335 CGAGAGGAAAGAAAGGGTACG 58.123 52.381 0.00 0.00 0.00 3.67
33 34 2.234168 AGCGAGAGGAAAGAAAGGGTAC 59.766 50.000 0.00 0.00 0.00 3.34
34 35 2.537143 AGCGAGAGGAAAGAAAGGGTA 58.463 47.619 0.00 0.00 0.00 3.69
35 36 1.353091 AGCGAGAGGAAAGAAAGGGT 58.647 50.000 0.00 0.00 0.00 4.34
36 37 2.351455 GAAGCGAGAGGAAAGAAAGGG 58.649 52.381 0.00 0.00 0.00 3.95
37 38 1.996191 CGAAGCGAGAGGAAAGAAAGG 59.004 52.381 0.00 0.00 0.00 3.11
38 39 1.996191 CCGAAGCGAGAGGAAAGAAAG 59.004 52.381 0.00 0.00 0.00 2.62
39 40 1.343465 ACCGAAGCGAGAGGAAAGAAA 59.657 47.619 0.00 0.00 0.00 2.52
40 41 0.966920 ACCGAAGCGAGAGGAAAGAA 59.033 50.000 0.00 0.00 0.00 2.52
41 42 0.966920 AACCGAAGCGAGAGGAAAGA 59.033 50.000 0.00 0.00 0.00 2.52
42 43 1.067495 AGAACCGAAGCGAGAGGAAAG 60.067 52.381 0.00 0.00 0.00 2.62
43 44 0.966920 AGAACCGAAGCGAGAGGAAA 59.033 50.000 0.00 0.00 0.00 3.13
44 45 0.243907 CAGAACCGAAGCGAGAGGAA 59.756 55.000 0.00 0.00 0.00 3.36
45 46 0.608308 TCAGAACCGAAGCGAGAGGA 60.608 55.000 0.00 0.00 0.00 3.71
46 47 0.179150 CTCAGAACCGAAGCGAGAGG 60.179 60.000 0.00 0.00 0.00 3.69
47 48 0.523966 ACTCAGAACCGAAGCGAGAG 59.476 55.000 0.00 0.00 0.00 3.20
48 49 0.522180 GACTCAGAACCGAAGCGAGA 59.478 55.000 0.00 0.00 0.00 4.04
49 50 0.456995 GGACTCAGAACCGAAGCGAG 60.457 60.000 0.00 0.00 0.00 5.03
50 51 1.585006 GGACTCAGAACCGAAGCGA 59.415 57.895 0.00 0.00 0.00 4.93
51 52 1.446272 GGGACTCAGAACCGAAGCG 60.446 63.158 0.00 0.00 0.00 4.68
52 53 0.670854 GTGGGACTCAGAACCGAAGC 60.671 60.000 0.00 0.00 0.00 3.86
53 54 0.037232 GGTGGGACTCAGAACCGAAG 60.037 60.000 0.00 0.00 0.00 3.79
54 55 2.055299 GGTGGGACTCAGAACCGAA 58.945 57.895 0.00 0.00 0.00 4.30
55 56 3.787394 GGTGGGACTCAGAACCGA 58.213 61.111 0.00 0.00 0.00 4.69
57 58 2.663196 CCGGTGGGACTCAGAACC 59.337 66.667 0.00 0.00 34.06 3.62
58 59 1.889530 CTCCCGGTGGGACTCAGAAC 61.890 65.000 0.00 0.00 46.17 3.01
59 60 1.609501 CTCCCGGTGGGACTCAGAA 60.610 63.158 0.00 0.00 46.17 3.02
60 61 2.037367 CTCCCGGTGGGACTCAGA 59.963 66.667 0.00 0.00 46.17 3.27
61 62 3.077556 CCTCCCGGTGGGACTCAG 61.078 72.222 0.00 0.00 46.17 3.35
92 93 3.068729 GATTTCAAGCTGGCCGGCC 62.069 63.158 39.40 39.40 0.00 6.13
93 94 1.876497 TTGATTTCAAGCTGGCCGGC 61.876 55.000 30.15 30.15 0.00 6.13
94 95 0.171903 CTTGATTTCAAGCTGGCCGG 59.828 55.000 7.41 7.41 45.59 6.13
95 96 3.708195 CTTGATTTCAAGCTGGCCG 57.292 52.632 7.34 0.00 45.59 6.13
221 222 4.354943 AGGAGGGGGTGAGGTGGG 62.355 72.222 0.00 0.00 0.00 4.61
222 223 2.689034 GAGGAGGGGGTGAGGTGG 60.689 72.222 0.00 0.00 0.00 4.61
223 224 2.689034 GGAGGAGGGGGTGAGGTG 60.689 72.222 0.00 0.00 0.00 4.00
556 557 1.003839 GCAGGAACACGATGTCCCA 60.004 57.895 0.00 0.00 0.00 4.37
714 715 6.879458 ACAGGAGCATAGAAAATTCGTTTAGT 59.121 34.615 0.00 0.00 0.00 2.24
765 785 2.050144 TGGCTCTTGAACCTGAGACTT 58.950 47.619 0.00 0.00 39.02 3.01
780 800 1.977129 AGCAGATCCTATCCTTGGCTC 59.023 52.381 0.00 0.00 0.00 4.70
782 802 2.903135 AGTAGCAGATCCTATCCTTGGC 59.097 50.000 0.00 0.00 0.00 4.52
796 816 2.300152 TGGGAGTGAGAAACAGTAGCAG 59.700 50.000 0.00 0.00 31.63 4.24
797 817 2.037251 GTGGGAGTGAGAAACAGTAGCA 59.963 50.000 0.00 0.00 31.63 3.49
808 828 8.041323 ACATATTACAACTAAAGTGGGAGTGAG 58.959 37.037 0.00 0.00 0.00 3.51
862 882 9.797556 AAAGTTAGTTAATCCGGCAATATTTTC 57.202 29.630 0.00 0.00 0.00 2.29
891 911 6.158598 CACACCAAATTAGTGCTGCTAAATT 58.841 36.000 0.00 1.70 42.35 1.82
927 947 4.306600 CCCAACCTGAAATGTAGCAAAAC 58.693 43.478 0.00 0.00 0.00 2.43
1096 1116 7.543359 TGGAAAGATCAAACAATGGAAGAAT 57.457 32.000 0.00 0.00 0.00 2.40
1135 1155 2.760092 GGTAAGCAGAAATGGGCATTCA 59.240 45.455 0.00 0.00 0.00 2.57
1439 1459 5.503662 TGATGCAGCCACAAAATGTATAG 57.496 39.130 0.00 0.00 0.00 1.31
1533 1553 5.874261 AGCAAATGGGCACACAAAAATATAC 59.126 36.000 0.00 0.00 35.83 1.47
1586 1607 6.592207 AAAAACTAGCCTATCAGGGGTATT 57.408 37.500 0.00 0.00 38.45 1.89
1609 1630 7.596494 CAGCATTGGAGAGAGATTAACAAAAA 58.404 34.615 0.00 0.00 0.00 1.94
1610 1631 6.349611 GCAGCATTGGAGAGAGATTAACAAAA 60.350 38.462 0.00 0.00 0.00 2.44
1637 1658 6.552445 AGGCATGATTGTAAGACTTCTAGT 57.448 37.500 0.00 0.00 0.00 2.57
1650 1671 2.673043 GCACACCTCAAAGGCATGATTG 60.673 50.000 0.00 0.00 39.63 2.67
1676 1697 7.130917 GCATATGCAGATGTAAACTCAAGAAG 58.869 38.462 22.84 0.00 41.59 2.85
2126 2151 4.035208 CAGTCACAACCTTACCACAAGTTC 59.965 45.833 0.00 0.00 0.00 3.01
2186 2211 4.236935 CCGCAAGTGAAAATTACAGCATT 58.763 39.130 0.00 0.00 0.00 3.56
2380 2444 3.330701 ACTGGAAAAGGATACCTTGCTGA 59.669 43.478 3.73 0.00 43.92 4.26
2641 2705 0.254462 TCACCACACCAGCAGAACAA 59.746 50.000 0.00 0.00 0.00 2.83
2664 2728 2.867624 TGCAGCTTCCAGAAATCTTGT 58.132 42.857 0.00 0.00 0.00 3.16
2729 2793 3.070018 CCAAGGCAGAACTTACACAGAG 58.930 50.000 0.00 0.00 0.00 3.35
2732 2796 3.290948 AACCAAGGCAGAACTTACACA 57.709 42.857 0.00 0.00 0.00 3.72
3020 3089 5.240623 TGTGAATTCATCAAGTTGTACCACC 59.759 40.000 12.12 0.00 40.50 4.61
3085 3156 7.978414 TGCAATTCCGCATAATTCAAAATTCTA 59.022 29.630 0.00 0.00 36.86 2.10
3189 3260 7.837202 ACACTGCACGCTAAAATATAAGTTA 57.163 32.000 0.00 0.00 0.00 2.24
3346 3417 3.372206 GGGAATTGATAATCTCATCCGCG 59.628 47.826 0.00 0.00 34.90 6.46
3521 3592 8.299990 CAATAAACCATGGGTCTATTGGTAAA 57.700 34.615 23.47 0.00 40.78 2.01
3554 3625 2.094675 CGGCCAAATCCTTTGATCACT 58.905 47.619 2.24 0.00 43.26 3.41
3632 3703 9.461312 AAGGTTTGAAAACATGCTAGTGATATA 57.539 29.630 8.11 0.00 40.63 0.86
3768 3839 2.070650 GTAGGCCAGGTAGGTGGGG 61.071 68.421 5.01 0.00 40.61 4.96
3773 3844 1.580059 TTGGAAGTAGGCCAGGTAGG 58.420 55.000 5.01 0.00 36.64 3.18
3777 3849 2.509964 AGGTATTTGGAAGTAGGCCAGG 59.490 50.000 5.01 0.00 36.64 4.45
3798 3870 5.990386 TCCTAGTAACGCAAAACACATAACA 59.010 36.000 0.00 0.00 0.00 2.41
3825 3897 1.849039 AGCATGGGTTCCTCTAGCAAT 59.151 47.619 0.00 0.00 0.00 3.56
3845 3917 4.733850 CACAACGTCAGCTATTCTACAGA 58.266 43.478 0.00 0.00 0.00 3.41
3905 3977 6.418101 ACATACAATTCAGTTAGGTGCTCAT 58.582 36.000 0.00 0.00 0.00 2.90
4021 5089 3.980646 TGATGCACGCATATTTAACCC 57.019 42.857 4.13 0.00 36.70 4.11
4276 6845 2.748461 TGTCGGAAAAGTTTTCTGCG 57.252 45.000 26.03 20.95 0.00 5.18
4336 6905 2.445438 GCCTCGCTTCGAAAGTCCG 61.445 63.158 0.00 0.13 34.74 4.79
4523 7092 3.197614 CGCAGCTCCTCTCCGTAA 58.802 61.111 0.00 0.00 0.00 3.18
4642 7213 6.385033 CCTGAGCATTTCAAAAGAAGTAAGG 58.615 40.000 0.00 0.00 34.81 2.69
4645 7216 4.826733 TGCCTGAGCATTTCAAAAGAAGTA 59.173 37.500 0.00 0.00 46.52 2.24
4731 7302 1.271840 ACTCCGGCAAATCTAGGGCA 61.272 55.000 0.00 0.00 0.00 5.36
4769 7340 1.270947 ACGGGTTTCTCAAATACGGCA 60.271 47.619 0.00 0.00 0.00 5.69
4936 7508 2.059541 CGCCGCTACTCCTAAAATAGC 58.940 52.381 0.00 0.00 38.36 2.97
5054 7630 9.825972 CTTCACAATTCTCGTTGTATAAATTGT 57.174 29.630 6.07 6.07 46.14 2.71
5109 7685 3.690139 TCAGAGAAGAGATGGTACGTGAC 59.310 47.826 0.00 0.00 0.00 3.67
5147 7883 5.856126 TGCATGCTTACAAAGTACAGTAC 57.144 39.130 20.33 2.05 0.00 2.73
5150 7886 5.352293 TCAGATGCATGCTTACAAAGTACAG 59.648 40.000 20.33 0.00 0.00 2.74
5152 7888 5.801350 TCAGATGCATGCTTACAAAGTAC 57.199 39.130 20.33 0.00 0.00 2.73
5153 7889 6.430925 AGTTTCAGATGCATGCTTACAAAGTA 59.569 34.615 20.33 0.00 0.00 2.24
5154 7890 5.242393 AGTTTCAGATGCATGCTTACAAAGT 59.758 36.000 20.33 11.38 0.00 2.66
5155 7891 5.706916 AGTTTCAGATGCATGCTTACAAAG 58.293 37.500 20.33 2.65 0.00 2.77
5206 7944 1.888018 CTCACAAGGGGCAGCAATG 59.112 57.895 0.00 0.00 0.00 2.82
5242 7980 2.420022 GCTACTCAATTTCATGCACCGT 59.580 45.455 0.00 0.00 0.00 4.83
5279 8017 4.823790 AAGTGACCACGTTTGAATTACC 57.176 40.909 0.00 0.00 36.20 2.85
5283 8021 3.566742 GGGTAAAGTGACCACGTTTGAAT 59.433 43.478 6.64 0.00 41.73 2.57
5304 8042 3.704061 ACCAATGTAAATTTCGGGGATGG 59.296 43.478 0.00 0.30 0.00 3.51
5343 8081 7.096558 CGAGACTTCTGTAATCGTAATTTAGGC 60.097 40.741 0.00 0.00 33.49 3.93
5348 8086 6.849502 TGACGAGACTTCTGTAATCGTAATT 58.150 36.000 0.00 0.00 43.82 1.40
5350 8088 5.640783 TCTGACGAGACTTCTGTAATCGTAA 59.359 40.000 0.00 0.00 43.82 3.18
5361 8099 6.680874 TCTAGGTATTTCTGACGAGACTTC 57.319 41.667 0.00 0.00 0.00 3.01
5454 8192 3.186409 CCAGTCAAATCTTACACCACGTG 59.814 47.826 9.08 9.08 39.75 4.49
5461 8199 5.063204 CCAGTCAACCAGTCAAATCTTACA 58.937 41.667 0.00 0.00 0.00 2.41
5479 8217 4.211164 GCAAATTTTACAAGCAACCCAGTC 59.789 41.667 0.00 0.00 0.00 3.51
5484 8222 3.559242 TGCTGCAAATTTTACAAGCAACC 59.441 39.130 0.00 2.73 34.45 3.77
5485 8223 4.517287 GTGCTGCAAATTTTACAAGCAAC 58.483 39.130 2.77 5.13 34.45 4.17
5517 8273 7.560991 ACAGTGAGGGATGATTTATGCAAAATA 59.439 33.333 0.00 0.00 0.00 1.40
5523 8279 5.841957 AAACAGTGAGGGATGATTTATGC 57.158 39.130 0.00 0.00 0.00 3.14
5545 8301 0.948678 CTTGCCTCGTTCCGGAAAAA 59.051 50.000 20.79 9.10 0.00 1.94
5546 8302 0.887387 CCTTGCCTCGTTCCGGAAAA 60.887 55.000 20.79 9.49 0.00 2.29
5547 8303 1.302192 CCTTGCCTCGTTCCGGAAA 60.302 57.895 20.79 2.90 0.00 3.13
5565 8321 2.405143 GCCGAAATAAGGGGCTGAC 58.595 57.895 0.00 0.00 43.52 3.51
5592 8373 2.483877 TCCGCATTTGAGATGTGTTGAC 59.516 45.455 0.00 0.00 0.00 3.18
5613 9132 6.487668 TGATCGACATGCATGGATTTAAGAAT 59.512 34.615 29.41 5.21 0.00 2.40
5618 9137 6.229733 TGTATGATCGACATGCATGGATTTA 58.770 36.000 29.41 15.79 44.23 1.40
5630 9149 6.419710 GGACGATTTGTATTGTATGATCGACA 59.580 38.462 10.09 0.00 38.81 4.35
5637 9156 7.702386 TGAATTGGGACGATTTGTATTGTATG 58.298 34.615 0.00 0.00 0.00 2.39
5642 9161 6.582677 TGTTGAATTGGGACGATTTGTATT 57.417 33.333 0.00 0.00 0.00 1.89
5643 9162 6.582677 TTGTTGAATTGGGACGATTTGTAT 57.417 33.333 0.00 0.00 0.00 2.29
5652 9171 5.285651 TGTTTCGAATTGTTGAATTGGGAC 58.714 37.500 0.00 0.00 31.58 4.46
5666 9185 6.656314 TGCTATGTCGTATTTGTTTCGAAT 57.344 33.333 0.00 0.00 35.44 3.34
5709 9228 1.028905 CACCGAGCAAAAGGGAACAA 58.971 50.000 0.00 0.00 0.00 2.83
5744 9264 2.463752 AGCTTGATTGGCCATCACAAT 58.536 42.857 6.09 0.00 41.98 2.71
5758 9278 5.415701 GGATATCTTGTTGGTCAAAGCTTGA 59.584 40.000 0.00 0.00 35.48 3.02
5766 9286 8.421249 AATTTTTGAGGATATCTTGTTGGTCA 57.579 30.769 2.05 0.00 0.00 4.02
5792 9312 1.604378 CAAGAGGTCCGGCATCCTT 59.396 57.895 12.54 4.16 33.83 3.36
5795 9315 2.514824 GGCAAGAGGTCCGGCATC 60.515 66.667 0.00 0.00 0.00 3.91
5812 9332 8.661352 AGAAGAAGAAGAAGAAGAAGACAAAG 57.339 34.615 0.00 0.00 0.00 2.77
5813 9333 9.103861 GAAGAAGAAGAAGAAGAAGAAGACAAA 57.896 33.333 0.00 0.00 0.00 2.83
5814 9334 8.482128 AGAAGAAGAAGAAGAAGAAGAAGACAA 58.518 33.333 0.00 0.00 0.00 3.18
5815 9335 8.017418 AGAAGAAGAAGAAGAAGAAGAAGACA 57.983 34.615 0.00 0.00 0.00 3.41
5816 9336 8.887036 AAGAAGAAGAAGAAGAAGAAGAAGAC 57.113 34.615 0.00 0.00 0.00 3.01


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.